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. 2022 Sep 21;11:1077. [Version 1] doi: 10.12688/f1000research.123591.1

Figure 3. Typical work flow in the Squalomix Consortium.

Figure 3.

Whole genome sequencing (WGS) is mainly performed with the Sequel II/IIe platform (Pacific Biosciences, Inc.) to obtain high-fidelity (HiFi) long reads, which is supplemented by short-read sequencing. Extraction of high molecular weight (HMW) genomic DNA is mainly performed using the NucleoBond columns (Macherey-Nagel, Inc.) and the extracted DNA is controlled with Agilent TapeStation systems (Agilent Technologies, Inc.) as well as conventional pulse-field gel electrophoresis. Flow cytometry for genome size estimation employs the Ploidy Analyser platform (Sysmex Inc.). Hi-C sample preparation employs the iconHi-C protocol ( Kadota et al., 2020) that was optimized in-house based on several existing protocols.